A direct comparison of the KB™ Basecaller and phred for identifying the bases from DNA sequencing using chain termination chemistry.
A direct comparison of the KB™ Basecaller and phred for identifying the bases from DNA sequencing using chain termination chemistry.
复制标题
DOI：
10.1186/1756-0500-3-257
复制
发表时间：
2010-10-08
影响因子：
1.8
通讯作者：
Davis RW
中科院分区：
文献类型：
--
作者：
Hyman RW;Jiang H;Fukushima M;Davis RW
相对最近，软件KB™ Basecaller已经取代phred用于在采用双脱氧化学的DNA测序中从原始序列数据鉴定碱基。我们已经从数量上衡量了这种变化的后果。源自KB™ Basecaller的读段的高质量序列区段平均比源自phred的读段长30至50个碱基。然而，微生物鉴定似乎不受软件变更的影响。我们已经证明了与phred相比，KB™ Basecaller在高质量读取长度方面具有适度但统计学显著的优势。我们发现从序列数据鉴定的微生物物种的数量之间没有统计学显著差异。
Relatively recently, the software KB™ Basecaller has replaced phred for identifying the bases from raw sequence data in DNA sequencing employing dideoxy chemistry. We have measured quantitatively the consequences of that change. The high quality sequence segment of reads derived from the KB™ Basecaller were, on average, 30-to-50 bases longer than reads derived from phred. However, microbe identification appeared to have been unaffected by the change in software. We have demonstrated a modest, but statistically significant, superiority in high quality read length of the KB™ Basecaller compared to phred. We found no statistically significant difference between the numbers of microbial species identified from the sequence data.